 |
|
|
|
|
|
||
 |
 |
|
|
|
|||
| Biosciences |
BIOC 201. Advanced Molecular Biology—Literature-based lectures and discussion on rapidly developing frontiers in chromosome structure and function and modern insights into the control of gene expression. Emphasis is on experimental approaches and insights. Topics include chromosome organization, novel modes of transcriptional control, RNA-based mechanisms for controlling gene expression and emerging translational regulatory mechanisms. Prerequisite: undergraduate molecular biology.
5 units, not given this year
BIOC 202. Metabolic Biochemistry: Structure, Metabolism, and Energetics—(Review course for medical students only). Structure and function of biological molecules, enzyme kinetics and mechanisms, bioenergetics, pathways of intermediary metabolism and their control, and membrane structure and function. Course offered via online lectures and problem sets, with weekly small-group review sessions.
1-3 units, Aut (Brutlag, D)
BIOC 205. Molecular Foundations of Medicine—Topics include: DNA structure, replication, repair, and recombination; chromosome structure and function; gene expression including mechanisms for regulating transcription and translation; and methods for manipulating DNA, RNA, and proteins. Patient presentations illustrate how molecular biology affects the practice of medicine.
3 units, Aut (Brown, P; Chu, G; Krasnow, M)
BIOC 210. Advanced Topics in Membrane Trafficking—The structure, function, and biosynthesis of cellular membranes and organelles. Current literature. Prerequisite: consent of instructor.
3 units, Spr (Pfeffer, S)
BIOC 215. Frontiers in Biological Research—(Same as DBIO 215, GENE 215.) Literature discussion in conjunction with the Frontiers in Biological Research seminar series hosted by Biochemistry, Developmental Biology, and Genetics in which distinguished investigators present current work. Students and faculty meet beforehand to discuss papers from the speaker’s primary research literature. Students meet with the speaker after the seminar to discuss their research and future direction, commonly used techniques to study problems in biology, and comparison between the genetic and biochemical approaches in biological research.
1 unit, Aut, Win (Harbury, P; Brunet, A; Villeneuve, A)
BIOC 218. Computational Molecular Biology—(Same as BIOMEDIN 231.) Via Internet. For molecular biologists and computer scientists. Representation and analysis of genomes, sequences, and proteins. Strengths and limitations of existing methods. Course work performed on web or using downloadable applications. See http://biochem218.stanford.edu. Prerequisites: introductory molecular biology course at level of BIOSCI 41 or consent of instructor.
3 units, Aut, Win, Spr (Brutlag, D)
BIOC 220. Chemistry of Biological Processes—(Same as CSB 220.) The principles of organic and physical chemistry as applied to biomolecules. Goal is a working knowledge of chemical principles that underlie biological processes, and chemical tools used to study and manipulate biological systems. Prerequisites: organic chemistry and biochemistry, or consent of instructor.
4 units, Aut (Herschlag, D; Chen, J; Bogyo, M; Wandless, T)
BIOC 221. The Teaching of Biochemistry—Required for teaching assistants in Biochemistry. Practical experience in teaching on a one-to-one basis, and problem set design and analysis. Familiarization with current lecture and text materials; evaluations of class papers and examinations. Prerequisite: enrollment in the Biochemistry Ph.D. program or consent of instructor.
3 units,Aut, Win, Spr, Sum (Staff)
BIOC 224. Cell Biology of Physiological Processes—(Same as BIOSCI 214.) For Ph.D. students. Current research on cell structure, function, and dynamics. Topics include complex cell phenomena such as cell division, apoptosis, compartmentalization, transport and trafficking, motility and adhesion, differentiation, and multicellularity. Current papers from the primary literature. Prerequisite for advanced undergraduates: BIOSCI 129A,B, and consent of instructor. 2-5 units, Win (Theriot, J; Nelson, W; Straight, A; Bogyo, M; Pfeffer, S)
BIOC 225. Interdisciplinary Approaches to Cell Biology: the Role of the Cytoskeleton—The molecular basis of energy transduction leading to movements generated by microfilament-based and microtubule-based motors. Forms of myosin, dynein, and kinesin and their roles in the cell as a model for understanding the structural, biochemical, and functional properties of biological machines. Topics: structure of the molecular motors and their accessory proteins; regulation of the function of motile assemblies; functions of molecular motors in cells; spatial and temporal controls on the formation of motile assemblies in cells. Experimental approaches: genetic analysis, DNA cloning and expression, reconstitution of functional assemblies from purified proteins, x-ray diffraction, three-dimensional reconstruction of electron microscope images, spectroscopic methods, high-resolution light microscopy, and computational approaches. Prerequisites: basic biochemistry and cell biology.
3 units, Spr (Spudich, J)
BIOC 228. Computational Genomic Biology—Application of computational genomics methods to biological problems. Topics include: assembly of genomic sequences; genome databases; comparative genomics; gene discovery; gene expression analyses including gene clustering by expression, transcription factor binding site discovery, metabolic pathway discovery, functional genomics, and gene and genome ontologies; and medical diagnostics using SNPs and gene expression. Recent papers from the literature and hands-on use of the methods. Prerequisites: introductory course in computational molecular biology or genomics such as BIOC 218 or GENE 211. Via Internet in Winter and Spring.
3 units, Aut, Win, Spr (Brutlag, D)
BIOC 230. Molecular Interventions in Human Disease—For M.D. students who intend to declare a concentration in molecular basis of medicine, MSTP students, and Ph.D. students. Advanced medical biochemistry focusing on cases where molecular-level research has led to new medical treatments or changes in the understanding of important diseases. Different topics each week explore the underlying molecular basis of a variety of diseases and the reasons for success and failure in molecular approaches to treatment. Student-led discussions dissect papers from the primary medical and scientific research literature.
2-3 units, Aut (Theriot, J; Harbury, P)
BIOC 238. Computational Proteomic Biology—Application of computational protein analysis to biological problems. Topics include: protein sequence analysis and comparison including protein sequence databases, amino acid composition, protein alignment, protein motifs, protein families, and probabilistic models of families; protein structure including structure comparison and superposition methods, structural motifs, and structure and domain databases; protein structure prediction including secondary structure, homology modeling, threading, and abinitio structure prediction; protein-protein interaction databases and protein-protein interaction prediction; and protein-DNA interaction motifs and protein-ligand docking. Prerequisite: BIOC 218 or SBIO/BIOPHYS 228. Via Internet in Spring.
3 units, Win, Spr (Brutlag, D)
BIOC 241. Biological Macromolecules—(Same as BIOPHYS 241, SBIO 241.) The physical and chemical basis of macromolecular function. Forces that stabilize biopolymers with three-dimensional structures and their functional implications. Thermodynamics, molecular forces, and kinetics of enzymatic and diffusional processes, and relationship to their practical application in experimental design and interpretation. Biological function and the level of individual molecular interactions and at the level of complex processes. Case studies. Prerequisites: introductory biochemistry and physical chemistry or consent of instructor.
3-5 units, Aut (Herschlag, D; Puglisi, J; Garcia, K; Ferrell, J; Block, S;Pande, V; Weis, W;
Harbury, P)
BIOC 257. Currents in Biochemistry—Seminars by Biochemistry faculty on their ongoing research. Background, current advances and retreats, general significance, and tactical and strategic research directions.
1 unit, Aut (Spudich, J)
BIOC 299. Directed Reading in Biochemistry—Prerequisite: consent of instructor.
1-18 units, Aut, Win, Spr, Sum (Staff)
BIOC 399. Graduate Research and Special Advanced Work—Investigations sponsored by individual faculty members.
1-18 units, Aut, Win, Spr, Sum (Staff)
BIOC 459. Frontiers in Interdisciplinary Biosciences—(Same as BIOE 459, BIOSCI 459, CHEMENG 459, CHEM 459, PSYCH 459. Students register through their affiliated department; otherwise register for CHEMENG 459.) For specialists and non-specialists. Sponsored by the Stanford BioX Program. Three seminars per quarter address scientific and technical themes related to interdisciplinary approaches in bioengineering, medicine, and the chemical, physical, and biological sciences. Leading investigators from Stanford and the world present breakthroughs and endeavors that cut across core disciplines. Pre-seminars introduce basic concepts and background for non-experts. Registered students attend all pre-seminars; others welcome. See http://www.stanford.edu/group/biox/courses/459.html. Recommended: basic mathematics, biology, chemistry, and physics.
1 unit, Aut, Win , Spr (Robertson, C)
COGNATE COURSES
See respective department listings for course description. See degree requirements above or the program’s student services office for applicability of these courses to a major or minor program.
CHEMENG 450. Advances in Biotechnology
3 units, Spr (Hwang, L; Swartz, J)
SBIO 242. Methods in Molecular Biophysics—(Same as BIOPHYS 242.)
3 units, alternate years, not given this year
